RnoINT0064016 @ rn6
Intron Retention
Gene
ENSRNOG00000057044 | Garnl3
Description
GTPase activating Rap/RanGAP domain-like 3 [Source:RGD Symbol;Acc:1564019]
Coordinates
chr3:12103051-12105214:-
Coord C1 exon
chr3:12105115-12105214
Coord A exon
chr3:12103170-12105114
Coord C2 exon
chr3:12103051-12103169
Length
1945 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATT
5' ss Score
8.83
3' ss Seq
ACCAACTGTCTCTTCTCTAGTCC
3' ss Score
8.79
Exon sequences
Seq C1 exon
AACGCAGCTGCTCTGCCAGGCACTTGGCGAAGGACAGACGTGCACTTAGAAAACCCAGAGTACCACACCCGGTGGTATTTCAAGTACTTTTTAGGACAAG
Seq A exon
GTAATTATGTCATTGAGGTGACTGGGGGAAGAAATGTTCAAACCTGCATGAGTGGATGAAGTAATTCAGGACAACAGTGTCAGAGCACTCTATGGTAAGGTCAGGAGTGAGCTTTGTGGGCTAAAAGCCTCAACTCAGAGCTTTCTTGATTGCGGGTTGGTCTGTTGTGAGGAGTGCTGTGGGGGTTGGGGTTTTGATGCTGTTTTAATCCCTTATTAAGAGGGAATTAGCTCATAGCAATGAGTGCTTTGATAGATAAGAATTTTCAGAATGGAAAAAAGGCTTTAACTTAGCAAGGTCAGTTCCCTATCTGCATGAATTTTAAGCATTTCATTTGAGACCATGAAGGAGAACAAGTTTCCTGAGCCACCTCTTGGCTATAACACTGTGGACTCTGCCACATTCCCTCACCAGTGACAAGTACTTGTCTGGTGGACAGTGTATGTAGCCGTGAAGTGCAGTGCAAAGTGAACCACACCCTTTGCCCTCACGGAGCCTATAGATCCGATGTGCATTTGGTTCTGCTCTCATTAGTCTTGGGACTTGGACTTGGCTTCTCTGTCTGTAAAGTGGGTCTGTTTCTAGTCCTTCCAATGAGAGGTGCAAGGATAACAAAACTTGGTGCCTAATACACACCGAGAGCTCAGTTGCGCATAGGTTTTAGGCTGTCCACTTGGAGAGAGCAAGAGTAACTGGTGTGAATTTGAACTGTCAGAGATACGCCATAGGGGATCCATTGTGGAACATGATACTCAAGCCAGGATGTAGGAGTGAGTGATGTCTTTTTAAAAACCAGTTGCAGGGCTCAGATGGCAAGAGCCATTGCACTGCAACATGACAACCTGAGTTCAAATCCCTAGCCCCATGTAAAAAATCTGGACATGGCTGAGCATGCCTGCAACACCACACTGGAAAACCAACATGGGGAGATACTGGGAGCTCACTGGCAGGTGACGTGGTCAAAATGGAGACTGTCCAGTCAAGCGAGAGATCCTGCTGAGAGCAGTGATGCAAGACACCCAGTATCCTCCCTTGGCTTCCTAAGACAGGCATGCACGCACACTCACACATACATGTTTGGGCAATACACACACACACACACACACACACACACACACCAACATGCTGCACATAATGACAAGGAAAACTGTAACAGTATTATTCTAAAAAGGTCAGATCTGGCCAGGCAGGGTTCTTAGGTGGGTGAGGGTATAGAAGCATTTACCAAGAAAGAAATGTGTCAGTCATCTTCTCCATGGCTGGGCACAGAGCACCCACAGTGTTGGCTTCACAGCCAAAAGCTGTGAGTTTGAATGCCACCAGCATCCAAAGAGGTGATACAAAGCCTCAAACTGGGTTAAACGAGAAGGAATCCAGCAAAGGTTGAGGCCAGCATAATTGACACAGCAAGTTACAGCTCAGCCAGGGAAGGCTCTGTGCTTGGTGGCAGCAACAGTTCAGTGGTAGCAAGGCCTAGAACCTTCCACCTTTTCTGCTTCTCAACCTTAGTGCAGTGGCTTTGCCCTCCTTAGGACCATACAGTGGCTGCAGTAGCTCCAGACATCACCTGACACTACGACATACAGAGGAAGGGGCCATTTTTAGTGTGGGAAGCCTTCCCATCAGGCTCTGGGCAGATTTCTCACCCTGTCTCAGTTGCCATTGAAACACGTGTCATTTCTGAGCCACTTGCTTGCAGAGAGAAGTGTGTGCATGATTAGCGCTCAACTCCTACCCAAGTCAGCCGCAGGCTAGCATGCGAGTGCTCAACTCCTACCCAAGTCAGCCGCGGGCTAGCATGCGAGTGCTCAACTCCTACCCAAGTCAGCCTCGGGCTAGCATTCGAGTGCTCAACTCCTACCCAAGTCAGCCGCAGGCTAGCATGCGAGTGCTGGCCACTTCTGTCTGAAGGAACCAGCTGGGTCACCAACTGTCTCTTCTCTAG
Seq C2 exon
TCCATCAGAATTACATTGGAAATGATGCCGAGAAGAGTCCCTTCTTCTTGTCTGTCACACTCTCTGACCAGAATAACCAGCGTGTCCCTCAGTATCGTGCGATTCTGTGGCGGAAAACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000057044:ENSRNOT00000082696:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.191 A=NA C2=0.013
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGCTGCTCTGCCAGGCA
R:
GTTTTCCGCCACAGAATCGCA
Band lengths:
214-2159
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]